miRNA display CGI


Results 1 - 20 of 90 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
2059 3' -57 NC_001348.1 + 121461 0.66 0.867186
Target:  5'- aCUCCGuCCCCCGAUgCAugcgcaugACCCgCu -3'
miRNA:   3'- -GGGGC-GGGGGUUGgGUuuua----UGGGgG- -5'
2059 3' -57 NC_001348.1 + 109 0.66 0.867186
Target:  5'- cCCCCcCCCgCCAGCCUuuAAcaaaACCCgCg -3'
miRNA:   3'- -GGGGcGGG-GGUUGGGuuUUa---UGGGgG- -5'
2059 3' -57 NC_001348.1 + 92492 0.66 0.867186
Target:  5'- gUUCGUaaUCCCAACCCAcauggACCUCCu -3'
miRNA:   3'- gGGGCG--GGGGUUGGGUuuua-UGGGGG- -5'
2059 3' -57 NC_001348.1 + 108331 0.66 0.867186
Target:  5'- aCUCCGuCCCCCGAUgCAugcgcaugACCCgCu -3'
miRNA:   3'- -GGGGC-GGGGGUUGgGUuuua----UGGGgG- -5'
2059 3' -57 NC_001348.1 + 338 0.66 0.866443
Target:  5'- uCCCCGCCUCUuuuuCCUcacguggAGAAUggcACCaCCCa -3'
miRNA:   3'- -GGGGCGGGGGuu--GGG-------UUUUA---UGG-GGG- -5'
2059 3' -57 NC_001348.1 + 108845 0.66 0.859665
Target:  5'- uUCCCGUCCCa---CCAug--ACCCCg -3'
miRNA:   3'- -GGGGCGGGGguugGGUuuuaUGGGGg -5'
2059 3' -57 NC_001348.1 + 120946 0.66 0.859665
Target:  5'- uUCCCGUCCCa---CCAug--ACCCCg -3'
miRNA:   3'- -GGGGCGGGGguugGGUuuuaUGGGGg -5'
2059 3' -57 NC_001348.1 + 111246 0.66 0.859665
Target:  5'- uCCCCGUCUCgauaaCAAUCgCcGGGUACCCCg -3'
miRNA:   3'- -GGGGCGGGG-----GUUGG-GuUUUAUGGGGg -5'
2059 3' -57 NC_001348.1 + 118546 0.66 0.859665
Target:  5'- uCCCCGUCUCgauaaCAAUCgCcGGGUACCCCg -3'
miRNA:   3'- -GGGGCGGGG-----GUUGG-GuUUUAUGGGGg -5'
2059 3' -57 NC_001348.1 + 114986 0.66 0.851941
Target:  5'- aCCCGCgacaCCCAAagggUCCG--GUACCUCCc -3'
miRNA:   3'- gGGGCGg---GGGUU----GGGUuuUAUGGGGG- -5'
2059 3' -57 NC_001348.1 + 106751 0.66 0.851941
Target:  5'- ---gGCCCCCcggggaauACgCCGAAAU-CCCCCg -3'
miRNA:   3'- ggggCGGGGGu-------UG-GGUUUUAuGGGGG- -5'
2059 3' -57 NC_001348.1 + 123041 0.66 0.851941
Target:  5'- ---gGCCCCCcggggaauACgCCGAAAU-CCCCCg -3'
miRNA:   3'- ggggCGGGGGu-------UG-GGUUUUAuGGGGG- -5'
2059 3' -57 NC_001348.1 + 2531 0.66 0.851941
Target:  5'- aUCCCGCccauauauCCCCAacgucGCCUuAAAaACUCCCa -3'
miRNA:   3'- -GGGGCG--------GGGGU-----UGGGuUUUaUGGGGG- -5'
2059 3' -57 NC_001348.1 + 70093 0.66 0.841606
Target:  5'- aUCUCGCCUCCAugUuugCGGGGUAuggaaauuaagcauCCCCCg -3'
miRNA:   3'- -GGGGCGGGGGUugG---GUUUUAU--------------GGGGG- -5'
2059 3' -57 NC_001348.1 + 124702 0.66 0.839987
Target:  5'- aCUCCGucaCCCCCGACUCugcggggggcuccuCCCCCc -3'
miRNA:   3'- -GGGGC---GGGGGUUGGGuuuuau--------GGGGG- -5'
2059 3' -57 NC_001348.1 + 105090 0.66 0.839987
Target:  5'- aCUCCGucaCCCCCGACUCugcggggggcuccuCCCCCc -3'
miRNA:   3'- -GGGGC---GGGGGUUGGGuuuuau--------GGGGG- -5'
2059 3' -57 NC_001348.1 + 68584 0.66 0.839175
Target:  5'- aCCCCacuaccgccagaaacGCCCCU--CCUAAAGagGCCCCa -3'
miRNA:   3'- -GGGG---------------CGGGGGuuGGGUUUUa-UGGGGg -5'
2059 3' -57 NC_001348.1 + 9296 0.67 0.827614
Target:  5'- gCCCGUguugaCCCCAaaacagACgCAAGAUguacaacgcacaACCCCCg -3'
miRNA:   3'- gGGGCG-----GGGGU------UGgGUUUUA------------UGGGGG- -5'
2059 3' -57 NC_001348.1 + 117238 0.67 0.827614
Target:  5'- aCCgGCgaCUacuaAACCCAAGGaaauUACCCCCg -3'
miRNA:   3'- gGGgCGg-GGg---UUGGGUUUU----AUGGGGG- -5'
2059 3' -57 NC_001348.1 + 74257 0.67 0.819144
Target:  5'- --gCGCCCCCGAUgCGGGA-GCCgCCa -3'
miRNA:   3'- gggGCGGGGGUUGgGUUUUaUGGgGG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.